Cells use 'noise' to make cell-fate decisions

Mar 22, 2007

Electrical noise, like the crackle heard on AM radio when lightning strikes nearby, is a nuisance that wreaks havoc on electronic devices. But within cells, a similar kind of biochemical “noise” is beneficial, helping cells transform from one state to another, according to a new study led by a UT Southwestern Medical Center researcher.

Dr. Gürol Süel, assistant professor of pharmacology, said his research and that of his colleagues published today in the journal Science represents “a new paradigm,” suggesting that rather than being bad for biology, cellular noise might have an important function, such as prompting stem cells to transform into a specific tissue type.

Electronic noise is an unwanted signal characteristic of all electrical circuits, typically caused by random fluctuations in the electric current passing through the components of a circuit. Similarly, within each living cell there are myriad “genetic circuits,” each composed of a distinct set of biochemical reactions that contribute to some biological process. Randomness in those reactions contributes to biological noise, technically referred to as stochastic fluctuations.

“Noise in biological systems is a fact of life,” said Dr. Süel, a member of the systems biology division of the Cecil H. and Ida Green Comprehensive Center for Molecular, Computational and Systems Biology at UT Southwestern. “Even though each cell may have the same set of genes turned on – the same hard-wired genetic circuit – there will still be slight variations in the amount of the various proteins those genes produce, some fluctuation in the amount of each circuit component. No two cells are alike in terms of their chemical composition.”

Conventional scientific thinking has been that the random nature of such fluctuations within cells interferes with the reliable operation of biological systems. However, Dr. Süel’s research team hypothesized that noise in one particular genetic circuit might be beneficial, linked to a process that controls cell fate.

To determine the biological role for noise, the researchers analyzed a genetic circuit that controls the transformation of bacteria cells from one state to another. This process, called differentiation, is akin to that used by human stem cells to change into a specific tissue type.

In a series of theoretical calculations and actual experiments, the researchers found that the particular circuit they investigated appears to have evolved in this bacterium to amplify cellular noise. Dr. Süel and his colleagues determined that by dampening the noise level within the bacterial cells, they could prevent the cells’ transformation between states, essentially “tuning” cellular behavior.

“The amplitude of cellular noise correlates with the probability of triggering differentiation,” Dr. Süel said. “This is experimental evidence that a genetic circuit utilizes noise to drive a biological process.”

Typically, scientists examine genes and proteins individually to try to determine their functions within a cell. However, Dr. Süel said that’s like examining each capacitor or switch in an electrical circuit in an attempt to understand the function of the electrical device in which the circuit is housed.

“Our research provides a systems-level view of how gene circuits work as a whole,” he said.

Dr. Süel said the next step in his research would be to uncover the theoretical design principles of genetic circuits and what role interactions between distinct circuits play in regulating complex biological processes, such the differentiation of multipotent stem cells.

Dr. Süel, who earned his doctorate in molecular biophysics from UT Southwestern, carried out much of the work for the Science paper while a postdoctoral research fellow at the California Institute of Technology. He joined the UT Southwestern faculty in November and is an Endowed Scholar in Biomedical Research.

Other co-authors on the Science paper are Rajan Kulkarni and senior author Michael Elowitz, both of Caltech; Jonathan Dworkin of Columbia University; and Jordi Garcia-Ojalvo of the Universitat Politecnica de Catalunya in Spain.

Source: UT Southwestern Medical Center

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HenisDov
not rated yet Mar 24, 2008
How Decisions Are Made Within The OCM (outer cell membrane)

http://www.physfo...ic=14988&st=180&#entry325606

A. From "Bistable Cell Division Switch":
http://www.eureka...2108.php

This switch is part of a critical pathway that controls cell division, production of new cells. Before a cell starts to divide, it goes through a checklist to make sure everything is in order. If the checklist uncovers something wrong, it can halt the process. But once a cell passes a "restriction point", there%u2019s no turning back, no matter the consequences. The switch controls this milestone and is key to cell growth.
The switch is part of the Rb-E2F signaling pathway. Rb, or retinoblastoma, is a key tumor suppressor GENE, and E2F is a protein, a GENE TRANSCRIPTION FACTOR that governs the expression of all the genes essential for cells to grow. This wiring diagram is fundamentally the same in different organisms, to regulate their growth.
The cellular pathway that includes the switch is found in all multi-cellular life, from plants to people. A cell decides to trigger the pathway when it receives an external chemical signal to grow.

B. Who decides to do cell division or, generally, to do any thing, within the OCM, the outer cell membrane.

Let's leave aside the many decision-related questions such as when and how a need for a decision is prompted, how decisions are instructed and executed. Let's apply ourselves now ONLY to the question WHO makes the decision.

My conjecture is that the genome behaves not as being presided by a decider PG, by a President Gene, but by innate complete credence to each and every member of the cooperative genome commune of its genes membership, thus accepting a priori the decision of the individual member, but But BUt BUT coupling this with a very elaborate system of crisscross checklisting of this decision by other members of the genome.

Conjecturing,
Dov Henis